stc1 (SPBP8B7.28c)


Gene Standard Namestc1 Characterisation Statuspublished
Systematic IDSPBP8B7.28c Feature Typeprotein coding
Synonyms Name DescriptionSiRNA To Chromatin
ProductLIM-like protein linking chromatin modification to RNAi, Stc1 Product Size215aa, 25.07 kDa
Genomic Location Chromosome II, 3691942-3691008 (935nt); CDS:3691848-3691201 (648nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005515protein bindingIPIago1PMID:20211136887
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0044382CLRC ubiquitin ligase complex localization to heterochromatin2
localizes CLRC ubiquitin ligase complexIMPPMID:20211136
GO:0030702chromatin silencing at centromereIMPPMID:2021113653
GO:0031048chromatin silencing by small RNAIMPPMID:2021113620
GO:0035389establishment of chromatin silencing at silent mating-type cassetteIMPPMID:202111362
GO:0035390establishment of chromatin silencing at telomereIMPPMID:202111361
GO:0007126meiosisIMPPMID:16169489175
GO:0000070mitotic sister chromatid segregationIMPPMID:20211136133
GO:0051570regulation of histone H3-K9 methylationIMPPMID:2021113616
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0043494CLRC ubiquitin ligase complexIDAPMID:202111366
GO:0031618nuclear centromeric heterochromatin19
localization requires chromatin silencing by small RNAIDAPMID:20211136
GO:0005730nucleolusIDAPMID:16823372345
GO:0005634nucleusIDAPMID:168233722730
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001701sensitive to bortezomibCell growth assaystc1ΔNullPECO:0000005, PECO:0000137PMID:21760946256
expressivity FYPO_EXT:0000003
FYPO:0000085sensitive to camptothecincompetitive growth assay evidencestc1ΔNullPMID:20537132200
FYPO:0000091sensitive to thiabendazolecompetitive growth assay evidencestc1ΔNullPMID:2053713292
FYPO:0002060viable vegetative cell populationMicroscopystc1ΔNullPMID:204732893755
Microscopystc1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000190abnormal actin cortical patch localizationMicroscopystc1ΔNullPMID:2369780642
FYPO:0002398abnormal actin cytoskeletonMicroscopystc1ΔNullPMID:2369780636
FYPO:0000029abnormal chromosome segregationno_namePMID:20211136137
FYPO:0000273centromeric outer repeat transcripts absentno_namePMID:202111367
FYPO:0000227chromosome loss during mitotic chromosome segregationno_namePMID:202111367
FYPO:0000220increased centromeric outer repeat transcript levelno_namePMID:202111369
FYPO:0000228lagging mitotic chromosomesno_namePMID:2021113611
FYPO:0002112viable curved vegetative cellMicroscopystc1ΔNullPECO:0000005, PECO:0000137PMID:2369780657
penetrance FYPO_EXT:0000003
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
136919423691008

UTRs

Region Start End Reference
three_prime_UTR36912003691008PMID:21511999
five_prime_UTR36919423691849PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF12898 Pfam IPR024630 Stc1 domain 41 122 1
Low complexity (SEG) seg 139 156
Low complexity (SEG) seg 184 203

View domain organization at Pfam

Protein Properties

Ave. residue weight 116.63 Da
Charge -3.00
Isoelectric point 5.69
Molecular weight 25.07 kDa
Number of residues 215
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
NDduring GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
0.67during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.2during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
no apparent S. cerevisiae ortholog579
conserved in fungi only603
conserved in fungi4564
Orthologs

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
trm10tRNA m(1)G methyltransferase Trm10 Positive GeneticPMID:22681890
SPAC343.04cWD repeat protein, human WDR26 family, ubiquitin ligase complex subunit (predicted) Negative GeneticPMID:22681890
cdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
rik1silencing protein Rik1 Phenotypic SuppressionPMID:20211136
Positive GeneticPMID:22681890
clr4histone H3 lysine methyltransferase Clr4 Phenotypic SuppressionPMID:20211136
Positive GeneticPMID:22681890
toe2transcription factor, zf-fungal binuclear cluster type (predicted) Negative GeneticPMID:22681890
sap14U2 snRNP-associated protein SF3B14 Sap14 Negative GeneticPMID:22681890
swd1Set1C complex subunit Swd1 Positive GeneticPMID:22681890
sfp1transcription factor Sfp1 (predicted) Negative GeneticPMID:22681890
raf2Rik1-associated factor Raf2 Phenotypic SuppressionPMID:20211136
Positive GeneticPMID:22681890
par2protein phosphatase regulatory subunit Par2 Positive GeneticPMID:22681890
ers1RNA-silencing factor Ers1 Positive GeneticPMID:22681890
eso1sister chromatid cohesion protein/DNA polymerase eta Eso1 fusion protein Negative GeneticPMID:23050226
rad57RecA family ATPase Rad57/Rhp57 Positive GeneticPMID:22681890
dsk1SR protein-specific kinase Dsk1 Positive GeneticPMID:22681890
top1DNA topoisomerase I Positive GeneticPMID:22681890
vrp1verprolin Positive GeneticPMID:22681890
laf1clr6 L associated factor 1 Laf1 Negative GeneticPMID:22681890
raf1Rik1-associated factor Raf1 Phenotypic SuppressionPMID:20211136
SPCC162.11curidine kinase/uracil phosphoribosyltransferase (predicted) Positive GeneticPMID:22681890
nsk1Clp1-interacting protein Nsk1 Negative GeneticPMID:22681890
cyp7cyclophilin family peptidyl-prolyl cis-trans isomerase Cyp7 (predicted) Negative GeneticPMID:22681890
fft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Positive GeneticPMID:22681890
mst2histone acetyltransferase Mst2 Synthetic RescuePMID:21289066
hhp2serine/threonine protein kinase Hhp2 Positive GeneticPMID:22681890
sir2Sir2 family histone deacetylase Sir2 Phenotypic SuppressionPMID:20211136
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
ned8ubiquitin-like protein modifier Ned8 Affinity Capture-MSPMID:20211136
ebp2rRNA processing protein Ebp2 (predicted) Affinity Capture-MSPMID:20211136
SPAC1F12.07phosphoserine aminotransferase (predicted) Affinity Capture-MSPMID:20211136
raf1Rik1-associated factor Raf1 Affinity Capture-WesternPMID:23613586
Affinity Capture-MSPMID:20211136
Affinity Capture-Western
mas5DNAJ domain protein Mas5 (predicted) Affinity Capture-MSPMID:20211136
rik1silencing protein Rik1 Affinity Capture-WesternPMID:23613586
Affinity Capture-MSPMID:20211136
Affinity Capture-Western
Affinity Capture-WesternPMID:22319459
raf2Rik1-associated factor Raf2 Affinity Capture-WesternPMID:23613586
Affinity Capture-MSPMID:20211136
Affinity Capture-Western
ago1argonaute Reconstituted ComplexPMID:23613586
Affinity Capture-WesternPMID:20211136
Reconstituted Complex
SPAC23G3.06U3 snoRNP protein Nop58 (predicted) Affinity Capture-MSPMID:20211136
clr4histone H3 lysine methyltransferase Clr4 Affinity Capture-WesternPMID:23613586
Affinity Capture-WesternPMID:20211136
ers1RNA-silencing factor Ers1 Affinity Capture-WesternPMID:22733737
pcu4cullin 4 Affinity Capture-MSPMID:20211136
SPBC646.10cU3 snoRNP protein Nop56 (predicted) Affinity Capture-MSPMID:20211136
External References
Database Identifier Description
NBRP SPBP8B7.28c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBP8B7.28c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBP8B7.28c BioGRID Interaction Datasets
Expression Viewer SPBP8B7.28c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBP8B7.28c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBP8B7.28c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBP8B7.28c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBP8B7.28c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBP8B7.28c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBP8B7.28c Cell Cycle Data
GEO SPBP8B7.28c GEO profiles
PInt SPBP8B7.28c Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2541372sequence orphan
EntrezGene2541372sequence orphan
SPD / RIKEN07/07D12Orfeome Localization Data
UniProtKB/SwissProtO94276Meiotic chromosome segregation protein P8B7.28c
ModBaseO94276Database of comparative protein structure models
StringO94276Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596535sequence orphan
RefSeq mRNANM_001022456972h- sequence orphan (SPBP8B7.28c), mRNA
European Nucleotide ArchiveCAA21813ENA Protein Mapping
UniParcUPI000006B57EUniProt Archive

Literature for stc1

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014